Proteomics QC Report
2022-07-29 19:12:33
General information
Input file: /home/hendrik.weisser/Code/Proteomics_QC_public/example/merged.mzTab
4 samples processed:
- 20220223e_JR_SST_02
- 20220228a_JR_SST_02
- 20220301a_JR_SST_03
- 20220301a_JR_SST_05
Identification level
Max. q-value (PSM level): 0.01
| sample | MS2 spectra | id. rate (%) | PSMs | charged peptides (incl. mods) |
unique peptides (incl. mods) |
unique peptides (w/o mods) |
protein groups |
|---|---|---|---|---|---|---|---|
| 1 | 19973 | 21.3 | 4251 | 3061 | 2807 | 2756 | 1980 |
| 2 | 19918 | 13.8 | 2753 | 1885 | 1749 | 1705 | 1520 |
| 3 | 15217 | 9.3 | 1419 | 871 | 815 | 793 | 916 |
| 4 | 15960 | 10.8 | 1722 | 1027 | 958 | 943 | 989 |
Chromatography
The median retention time (RT) of a peptide in each sample is compared to its median RT across all samples. Only peptides identified in at least 3 samples are considered. For scaling purposes, 1% of outliers in terms of RT deviation were excluded from the plot.
Quantification level
Peptides
Proteins
Heatmap of protein abundances (log-scale)
Abundances are shown for 719 proteins (or ambiguity groups) that were quantified in at least half of all samples (i.e. min. 2 samples).